{"id":"https://openalex.org/W2350106363","doi":"https://doi.org/10.3233/978-1-60750-949-3-487","title":"Identifying Respiratory Findings in Emergency Department Reports for Biosurveillance using MetaMap","display_name":"Identifying Respiratory Findings in Emergency Department Reports for Biosurveillance using MetaMap","publication_year":2004,"publication_date":"2004-01-01","ids":{"openalex":"https://openalex.org/W2350106363","doi":"https://doi.org/10.3233/978-1-60750-949-3-487","mag":"2350106363","pmid":"https://pubmed.ncbi.nlm.nih.gov/15360860"},"language":"en","primary_location":{"id":"doi:10.3233/978-1-60750-949-3-487","is_oa":false,"landing_page_url":"https://doi.org/10.3233/978-1-60750-949-3-487","pdf_url":null,"source":{"id":"https://openalex.org/S4210179765","display_name":"Studies in health technology and informatics","issn_l":"0926-9630","issn":["0926-9630","1879-8365"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310318577","host_organization_name":"IOS Press","host_organization_lineage":["https://openalex.org/P4310318577"],"host_organization_lineage_names":["IOS Press"],"type":"book series"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Studies in Health Technology and Informatics","raw_type":"book-chapter"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5065170642","display_name":"Wendy W. Chapman","orcid":"https://orcid.org/0000-0001-8702-4483"},"institutions":[{"id":"https://openalex.org/I170201317","display_name":"University of Pittsburgh","ror":"https://ror.org/01an3r305","country_code":"US","type":"education","lineage":["https://openalex.org/I170201317"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Chapman Wendy W","raw_affiliation_strings":["RODS Laboratory, Center for Biomedical Informatics, University of Pittsburgh, 200 Lothrop Street, Pittsburgh, PA 15213, USA. chapman@cbmi.pitt.edu"],"affiliations":[{"raw_affiliation_string":"RODS Laboratory, Center for Biomedical Informatics, University of Pittsburgh, 200 Lothrop Street, Pittsburgh, PA 15213, USA. chapman@cbmi.pitt.edu","institution_ids":["https://openalex.org/I170201317"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5062552700","display_name":"Marcelo Fiszman","orcid":null},"institutions":[{"id":"https://openalex.org/I170201317","display_name":"University of Pittsburgh","ror":"https://ror.org/01an3r305","country_code":"US","type":"education","lineage":["https://openalex.org/I170201317"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Fiszman Marcelo","raw_affiliation_strings":["Univ. of Pittsburgh"],"affiliations":[{"raw_affiliation_string":"Univ. of Pittsburgh","institution_ids":["https://openalex.org/I170201317"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5111612956","display_name":"John Dowling","orcid":null},"institutions":[{"id":"https://openalex.org/I170201317","display_name":"University of Pittsburgh","ror":"https://ror.org/01an3r305","country_code":"US","type":"education","lineage":["https://openalex.org/I170201317"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Dowling John N","raw_affiliation_strings":["Univ. of Pittsburgh"],"affiliations":[{"raw_affiliation_string":"Univ. of Pittsburgh","institution_ids":["https://openalex.org/I170201317"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5011346354","display_name":"Brian E. Chapman","orcid":"https://orcid.org/0000-0003-0815-5448"},"institutions":[{"id":"https://openalex.org/I170201317","display_name":"University of Pittsburgh","ror":"https://ror.org/01an3r305","country_code":"US","type":"education","lineage":["https://openalex.org/I170201317"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Chapman Brian E","raw_affiliation_strings":["Univ. of Pittsburgh"],"affiliations":[{"raw_affiliation_string":"Univ. of Pittsburgh","institution_ids":["https://openalex.org/I170201317"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5046137010","display_name":"Thomas C. Rindflesch","orcid":null},"institutions":[{"id":"https://openalex.org/I170201317","display_name":"University of Pittsburgh","ror":"https://ror.org/01an3r305","country_code":"US","type":"education","lineage":["https://openalex.org/I170201317"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Rindflesch Thomas C","raw_affiliation_strings":["Univ. of Pittsburgh"],"affiliations":[{"raw_affiliation_string":"Univ. of Pittsburgh","institution_ids":["https://openalex.org/I170201317"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5065170642"],"corresponding_institution_ids":["https://openalex.org/I170201317"],"apc_list":null,"apc_paid":null,"fwci":6.1667,"has_fulltext":false,"cited_by_count":61,"citation_normalized_percentile":{"value":0.96498111,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"107","issue":"Pt 1","first_page":"487","last_page":"91"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9988999962806702,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9988999962806702,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11819","display_name":"Data-Driven Disease Surveillance","score":0.9908000230789185,"subfield":{"id":"https://openalex.org/subfields/2713","display_name":"Epidemiology"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T13083","display_name":"Advanced Text Analysis Techniques","score":0.9602000117301941,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/emergency-department","display_name":"Emergency department","score":0.8457452058792114},{"id":"https://openalex.org/keywords/medical-emergency","display_name":"Medical emergency","score":0.4815942943096161},{"id":"https://openalex.org/keywords/emergency-medicine","display_name":"Emergency medicine","score":0.44550952315330505},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.4426567256450653},{"id":"https://openalex.org/keywords/psychiatry","display_name":"Psychiatry","score":0.05376806855201721}],"concepts":[{"id":"https://openalex.org/C2780724011","wikidata":"https://www.wikidata.org/wiki/Q1295316","display_name":"Emergency department","level":2,"score":0.8457452058792114},{"id":"https://openalex.org/C545542383","wikidata":"https://www.wikidata.org/wiki/Q2751242","display_name":"Medical emergency","level":1,"score":0.4815942943096161},{"id":"https://openalex.org/C194828623","wikidata":"https://www.wikidata.org/wiki/Q2861470","display_name":"Emergency medicine","level":1,"score":0.44550952315330505},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.4426567256450653},{"id":"https://openalex.org/C118552586","wikidata":"https://www.wikidata.org/wiki/Q7867","display_name":"Psychiatry","level":1,"score":0.05376806855201721}],"mesh":[{"descriptor_ui":"D000043","descriptor_name":"Abstracting and Indexing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000043","descriptor_name":"Abstracting and Indexing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000043","descriptor_name":"Abstracting and Indexing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004196","descriptor_name":"Disease Outbreaks","qualifier_ui":"Q000517","qualifier_name":"prevention & control","is_major_topic":false},{"descriptor_ui":"D004196","descriptor_name":"Disease Outbreaks","qualifier_ui":"Q000517","qualifier_name":"prevention & control","is_major_topic":false},{"descriptor_ui":"D004196","descriptor_name":"Disease Outbreaks","qualifier_ui":"Q000517","qualifier_name":"prevention & control","is_major_topic":false},{"descriptor_ui":"D004636","descriptor_name":"Emergency Service, Hospital","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004636","descriptor_name":"Emergency Service, Hospital","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004636","descriptor_name":"Emergency Service, Hospital","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008499","descriptor_name":"Medical Records","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008499","descriptor_name":"Medical Records","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008499","descriptor_name":"Medical Records","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009323","descriptor_name":"Natural Language Processing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009323","descriptor_name":"Natural Language Processing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009323","descriptor_name":"Natural Language Processing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011159","descriptor_name":"Population Surveillance","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011159","descriptor_name":"Population Surveillance","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011159","descriptor_name":"Population Surveillance","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012140","descriptor_name":"Respiratory Tract Diseases","qualifier_ui":"Q000175","qualifier_name":"diagnosis","is_major_topic":false},{"descriptor_ui":"D012140","descriptor_name":"Respiratory Tract Diseases","qualifier_ui":"Q000175","qualifier_name":"diagnosis","is_major_topic":false},{"descriptor_ui":"D012140","descriptor_name":"Respiratory Tract Diseases","qualifier_ui":"Q000175","qualifier_name":"diagnosis","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017432","descriptor_name":"Unified Medical Language System","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017432","descriptor_name":"Unified Medical Language System","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017432","descriptor_name":"Unified Medical Language System","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D018875","descriptor_name":"Vocabulary, Controlled","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018875","descriptor_name":"Vocabulary, Controlled","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018875","descriptor_name":"Vocabulary, Controlled","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023482","descriptor_name":"Bioterrorism","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023482","descriptor_name":"Bioterrorism","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023482","descriptor_name":"Bioterrorism","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.3233/978-1-60750-949-3-487","is_oa":false,"landing_page_url":"https://doi.org/10.3233/978-1-60750-949-3-487","pdf_url":null,"source":{"id":"https://openalex.org/S4210179765","display_name":"Studies in health technology and informatics","issn_l":"0926-9630","issn":["0926-9630","1879-8365"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310318577","host_organization_name":"IOS Press","host_organization_lineage":["https://openalex.org/P4310318577"],"host_organization_lineage_names":["IOS Press"],"type":"book series"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Studies in Health Technology and Informatics","raw_type":"book-chapter"},{"id":"pmid:15360860","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/15360860","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Studies in health technology and informatics","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[{"display_name":"Reduced inequalities","score":0.5299999713897705,"id":"https://metadata.un.org/sdg/10"},{"display_name":"Peace, Justice and strong institutions","score":0.4699999988079071,"id":"https://metadata.un.org/sdg/16"}],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":15,"referenced_works":["https://openalex.org/W101651648","https://openalex.org/W228958188","https://openalex.org/W1425787433","https://openalex.org/W1550258693","https://openalex.org/W1589987816","https://openalex.org/W1602357614","https://openalex.org/W1637593105","https://openalex.org/W1858523989","https://openalex.org/W1978928459","https://openalex.org/W2131262274","https://openalex.org/W2139865360","https://openalex.org/W2141639820","https://openalex.org/W2153096407","https://openalex.org/W2181531510","https://openalex.org/W2270018644"],"related_works":["https://openalex.org/W4384345078","https://openalex.org/W2141668586","https://openalex.org/W2050305294","https://openalex.org/W2244194037","https://openalex.org/W4289223613","https://openalex.org/W2946391707","https://openalex.org/W2625702017","https://openalex.org/W322167246","https://openalex.org/W2255678829","https://openalex.org/W2164384113"],"abstract_inverted_index":{"Clinical":[0],"conditions":[1,37,74,90,112,145],"described":[2],"in":[3,50,79,146],"patients'":[4],"dictated":[5],"reports":[6,29,53],"are":[7],"necessary":[8],"for":[9,67],"automated":[10],"detection":[11,40],"of":[12,34,41,64,75,116,121,143,161],"patients":[13],"with":[14,54,60,113,151],"respiratory":[15,44],"illnesses":[16],"such":[17],"as":[18],"inhalational":[19],"anthrax":[20],"and":[21,70,96,118,138],"pneumonia.":[22],"We":[23,46,82],"applied":[24],"MetaMap":[25,108,152],"to":[26,30,39,77,86,101,157],"emergency":[27,51,148],"department":[28,52,149],"extract":[31],"a":[32,42,61,92,114,119],"set":[33],"71":[35],"clinical":[36,73,111,144,159],"relevant":[38],"lower":[43],"outbreak.":[45],"indexed":[47,58,99],"UMLS":[48,65],"terms":[49,66],"MetaMap,":[55],"filtered":[56],"the":[57,68,72,80,89,110,158],"output":[59],"specialized":[62],"lexicon":[63],"domain,":[69],"mapped":[71],"interest":[76],"concepts":[78],"lexicon.":[81],"compared":[83],"MetaMap's":[84,126],"ability":[85],"accurately":[87],"identify":[88],"against":[91],"physician's":[93],"manual":[94],"annotations":[95],"evaluated":[97],"incorrectly":[98],"features":[100],"determine":[102],"what":[103],"additional":[104],"processing":[105,124,154],"is":[106],"necessary.":[107],"identified":[109],"recall":[115],"0.72":[117],"precision":[120],"0.56.":[122],"Necessary":[123],"beyond":[125],"indexing":[127],"includes":[128],"finding":[129],"validation,":[130],"temporal":[131],"discrimination,":[132,135,137],"anatomic":[133],"location":[134],"finding-disease":[136],"contextual":[139],"inference.":[140],"Successful":[141],"identification":[142],"an":[147],"report":[150],"requires":[153],"techniques":[155],"specific":[156],"question":[160],"interest.":[162]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":3},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":2},{"year":2017,"cited_by_count":3},{"year":2016,"cited_by_count":2},{"year":2015,"cited_by_count":3},{"year":2014,"cited_by_count":4},{"year":2013,"cited_by_count":3},{"year":2012,"cited_by_count":2}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
